Calcium in PDB 9ewg: Dna Polymerase Lambda I493K, Ttp:at CA2+ Ground State Ternary Complex

All present enzymatic activity of Dna Polymerase Lambda I493K, Ttp:at CA2+ Ground State Ternary Complex:
2.7.7.7;

The structure of Dna Polymerase Lambda I493K, Ttp:at CA2+ Ground State Ternary Complex, PDB code: 9ewg was solved by A.Nourisson, A.Haouz, S.Missoury, M.Delarue, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	70.70 / 2.00
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	56.042, 62.504, 141.4, 90, 90, 90
R / Rfree (%)	20.5 / 25.2

The structure of Dna Polymerase Lambda I493K, Ttp:at CA2+ Ground State Ternary Complex also contains other interesting chemical elements:

Sodium

(Na)

3 atoms

The binding sites of Calcium atom in the Dna Polymerase Lambda I493K, Ttp:at CA2+ Ground State Ternary Complex (pdb code 9ewg). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Dna Polymerase Lambda I493K, Ttp:at CA2+ Ground State Ternary Complex, PDB code: 9ewg:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Dna Polymerase Lambda I493K, Ttp:at CA2+ Ground State Ternary Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Dna Polymerase Lambda I493K, Ttp:at CA2+ Ground State Ternary Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca607 b:78.0 occ:1.00 H A:SER417 2.4 43.3 1.0 O A:HOH809 2.7 48.9 1.0 HA3 A:GLY416 2.9 47.6 1.0 O A:HOH733 3.2 34.7 1.0 N A:SER417 3.2 36.0 1.0 O2P P:TMP101 3.3 123.4 1.0 O P:HOH216 3.4 65.5 1.0 O3P P:TMP101 3.5 124.2 1.0 OG A:SER417 3.5 49.5 1.0 HB3 A:SER417 3.6 52.1 1.0 CA A:GLY416 3.7 39.5 1.0 HA2 A:GLY416 3.7 47.6 1.0 HG A:SER417 3.7 59.5 1.0 H5'1 P:TMP101 3.8 141.1 1.0 O A:HOH813 3.9 87.1 1.0 CB A:SER417 4.0 43.3 1.0 OD2 A:ASP427 4.0 60.3 1.0 C A:GLY416 4.0 39.1 1.0 P P:TMP101 4.0 133.3 1.0 OD1 A:ASP427 4.0 74.4 1.0 CA A:SER417 4.2 43.2 1.0 CG A:ASP427 4.3 58.1 1.0 H A:ASP427 4.3 48.0 1.0 H A:TYR418 4.4 36.5 1.0 O A:ASP427 4.4 37.2 1.0 H A:GLY426 4.5 39.2 1.0 HH12 A:ARG420 4.6 45.4 1.0 HB3 A:CYS425 4.6 42.6 1.0 C5' P:TMP101 4.7 117.5 1.0 HA A:SER417 4.8 52.0 1.0 O3' P:TMP101 4.8 78.1 1.0 HB2 A:SER417 4.9 52.1 1.0 N A:GLY416 4.9 34.4 1.0 N A:ASP427 4.9 39.9 1.0 O5' P:TMP101 4.9 121.9 1.0 HO3' P:TMP101 5.0 93.8 1.0

Calcium binding site 2 out of 2 in the Dna Polymerase Lambda I493K, Ttp:at CA2+ Ground State Ternary Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Dna Polymerase Lambda I493K, Ttp:at CA2+ Ground State Ternary Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca101 b:97.1 occ:1.00 OP2 D:DC2 2.7 60.6 1.0 H5 D:DC2 2.7 54.2 1.0 H3' D:DG1 3.1 59.4 1.0 HG3 A:ARG308 3.2 89.1 1.0 H6 D:DC2 3.4 59.7 1.0 C5 D:DC2 3.5 45.1 1.0 HG2 A:ARG308 3.8 89.1 1.0 C6 D:DC2 3.8 49.7 1.0 O A:HOH780 3.9 66.0 1.0 H2' D:DG1 3.9 57.4 1.0 CG A:ARG308 3.9 74.1 1.0 P D:DC2 3.9 53.0 1.0 C3' D:DG1 4.0 49.4 1.0 O5' D:DC2 4.3 49.2 1.0 HH11 A:ARG308 4.4 102.4 1.0 H41 D:DC3 4.4 61.8 1.0 O3' D:DG1 4.4 56.6 1.0 H5'' D:DG1 4.5 66.6 1.0 C2' D:DG1 4.5 47.8 1.0 HD3 A:ARG308 4.6 97.3 1.0 H41 D:DC2 4.6 56.5 1.0 HB2 A:ARG308 4.7 88.9 1.0 C4 D:DC2 4.7 43.3 1.0 H2' D:DC2 4.8 65.5 1.0 CD A:ARG308 4.9 81.0 1.0 H8 D:DG1 4.9 51.7 1.0 NH1 A:ARG308 4.9 85.2 1.0 CB A:ARG308 5.0 74.0 1.0

A.Nourisson, A.Haouz, S.Missoury, M.Delarue. Dna Polymerase Lambda I493K, Ttp:at CA2+ Ground State Ternary Complex To Be Published.